Job ID = 14170666 SRX = SRX9434474 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 24027121 spots for SRR12982872/SRR12982872.sra Written 24027121 spots for SRR12982872/SRR12982872.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171124 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:10:31 24027121 reads; of these: 24027121 (100.00%) were unpaired; of these: 391561 (1.63%) aligned 0 times 5424390 (22.58%) aligned exactly 1 time 18211170 (75.79%) aligned >1 times 98.37% overall alignment rate Time searching: 00:10:31 Overall time: 00:10:31 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 9286981 / 23635560 = 0.3929 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 08:10:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 08:10:15: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:10:15: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:10:20: 1000000 INFO @ Sat, 11 Dec 2021 08:10:25: 2000000 INFO @ Sat, 11 Dec 2021 08:10:30: 3000000 INFO @ Sat, 11 Dec 2021 08:10:36: 4000000 INFO @ Sat, 11 Dec 2021 08:10:41: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 08:10:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 08:10:45: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:10:45: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:10:46: 6000000 INFO @ Sat, 11 Dec 2021 08:10:50: 1000000 INFO @ Sat, 11 Dec 2021 08:10:52: 7000000 INFO @ Sat, 11 Dec 2021 08:10:56: 2000000 INFO @ Sat, 11 Dec 2021 08:10:58: 8000000 INFO @ Sat, 11 Dec 2021 08:11:02: 3000000 INFO @ Sat, 11 Dec 2021 08:11:04: 9000000 INFO @ Sat, 11 Dec 2021 08:11:08: 4000000 INFO @ Sat, 11 Dec 2021 08:11:10: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 08:11:14: 5000000 INFO @ Sat, 11 Dec 2021 08:11:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 08:11:15: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:11:15: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:11:16: 11000000 INFO @ Sat, 11 Dec 2021 08:11:19: 6000000 INFO @ Sat, 11 Dec 2021 08:11:20: 1000000 INFO @ Sat, 11 Dec 2021 08:11:22: 12000000 INFO @ Sat, 11 Dec 2021 08:11:25: 7000000 INFO @ Sat, 11 Dec 2021 08:11:26: 2000000 INFO @ Sat, 11 Dec 2021 08:11:27: 13000000 INFO @ Sat, 11 Dec 2021 08:11:31: 8000000 INFO @ Sat, 11 Dec 2021 08:11:32: 3000000 INFO @ Sat, 11 Dec 2021 08:11:33: 14000000 INFO @ Sat, 11 Dec 2021 08:11:35: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:11:35: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:11:35: #1 total tags in treatment: 14348579 INFO @ Sat, 11 Dec 2021 08:11:35: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:11:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 08:11:36: #1 tags after filtering in treatment: 14348579 INFO @ Sat, 11 Dec 2021 08:11:36: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:11:36: #1 finished! INFO @ Sat, 11 Dec 2021 08:11:36: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:11:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:11:37: 9000000 INFO @ Sat, 11 Dec 2021 08:11:37: #2 number of paired peaks: 6392 INFO @ Sat, 11 Dec 2021 08:11:37: start model_add_line... INFO @ Sat, 11 Dec 2021 08:11:37: start X-correlation... INFO @ Sat, 11 Dec 2021 08:11:37: end of X-cor INFO @ Sat, 11 Dec 2021 08:11:37: #2 finished! INFO @ Sat, 11 Dec 2021 08:11:37: #2 predicted fragment length is 67 bps INFO @ Sat, 11 Dec 2021 08:11:37: #2 alternative fragment length(s) may be 4,67,598 bps INFO @ Sat, 11 Dec 2021 08:11:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.05_model.r WARNING @ Sat, 11 Dec 2021 08:11:37: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:11:37: #2 You may need to consider one of the other alternative d(s): 4,67,598 WARNING @ Sat, 11 Dec 2021 08:11:37: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 08:11:37: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:11:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:11:38: 4000000 INFO @ Sat, 11 Dec 2021 08:11:43: 10000000 INFO @ Sat, 11 Dec 2021 08:11:43: 5000000 INFO @ Sat, 11 Dec 2021 08:11:48: 11000000 INFO @ Sat, 11 Dec 2021 08:11:49: 6000000 INFO @ Sat, 11 Dec 2021 08:11:54: 12000000 INFO @ Sat, 11 Dec 2021 08:11:55: 7000000 INFO @ Sat, 11 Dec 2021 08:12:00: 13000000 INFO @ Sat, 11 Dec 2021 08:12:01: 8000000 INFO @ Sat, 11 Dec 2021 08:12:05: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:12:06: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:12:06: 9000000 INFO @ Sat, 11 Dec 2021 08:12:08: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:12:08: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:12:08: #1 total tags in treatment: 14348579 INFO @ Sat, 11 Dec 2021 08:12:08: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:12:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 08:12:08: #1 tags after filtering in treatment: 14348579 INFO @ Sat, 11 Dec 2021 08:12:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:12:08: #1 finished! INFO @ Sat, 11 Dec 2021 08:12:08: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:12:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:12:10: #2 number of paired peaks: 6392 INFO @ Sat, 11 Dec 2021 08:12:10: start model_add_line... INFO @ Sat, 11 Dec 2021 08:12:10: start X-correlation... INFO @ Sat, 11 Dec 2021 08:12:10: end of X-cor INFO @ Sat, 11 Dec 2021 08:12:10: #2 finished! INFO @ Sat, 11 Dec 2021 08:12:10: #2 predicted fragment length is 67 bps INFO @ Sat, 11 Dec 2021 08:12:10: #2 alternative fragment length(s) may be 4,67,598 bps INFO @ Sat, 11 Dec 2021 08:12:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.10_model.r WARNING @ Sat, 11 Dec 2021 08:12:10: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:12:10: #2 You may need to consider one of the other alternative d(s): 4,67,598 WARNING @ Sat, 11 Dec 2021 08:12:10: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 08:12:10: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:12:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:12:12: 10000000 INFO @ Sat, 11 Dec 2021 08:12:17: 11000000 INFO @ Sat, 11 Dec 2021 08:12:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:12:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:12:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.05_summits.bed INFO @ Sat, 11 Dec 2021 08:12:21: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (20504 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:12:23: 12000000 INFO @ Sat, 11 Dec 2021 08:12:28: 13000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:12:33: 14000000 INFO @ Sat, 11 Dec 2021 08:12:35: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:12:35: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:12:35: #1 total tags in treatment: 14348579 INFO @ Sat, 11 Dec 2021 08:12:35: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:12:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 08:12:35: #1 tags after filtering in treatment: 14348579 INFO @ Sat, 11 Dec 2021 08:12:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:12:35: #1 finished! INFO @ Sat, 11 Dec 2021 08:12:35: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:12:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:12:37: #2 number of paired peaks: 6392 INFO @ Sat, 11 Dec 2021 08:12:37: start model_add_line... INFO @ Sat, 11 Dec 2021 08:12:37: start X-correlation... INFO @ Sat, 11 Dec 2021 08:12:37: end of X-cor INFO @ Sat, 11 Dec 2021 08:12:37: #2 finished! INFO @ Sat, 11 Dec 2021 08:12:37: #2 predicted fragment length is 67 bps INFO @ Sat, 11 Dec 2021 08:12:37: #2 alternative fragment length(s) may be 4,67,598 bps INFO @ Sat, 11 Dec 2021 08:12:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.20_model.r WARNING @ Sat, 11 Dec 2021 08:12:37: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:12:37: #2 You may need to consider one of the other alternative d(s): 4,67,598 WARNING @ Sat, 11 Dec 2021 08:12:37: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 08:12:37: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:12:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:12:38: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:12:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:12:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:12:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.10_summits.bed INFO @ Sat, 11 Dec 2021 08:12:53: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (11669 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:13:05: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:13:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:13:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:13:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434474/SRX9434474.20_summits.bed INFO @ Sat, 11 Dec 2021 08:13:20: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (4075 records, 4 fields): 5 millis CompletedMACS2peakCalling